All pull requests

Pull requests

• activated int32_t align, fixed scoreidentical and set alinger size by max length of q,tdb

  #1134·Gyuuul2 opened Sep 17, 2026·

  ·
  1

• Balanced makepaddedseqdb across threads

  #1126·murfalo opened Aug 11, 2026·

  ·
  1

• Add Metal/MPS GPU backend for the ungapped prefilter on Apple Silicon

  #1121·fnachon opened Jul 16, 2026·

  ·
  2

• QueryMatcher fix and some small aux data related fixes

  #1102·mvankem opened Apr 24, 2026·

  ·
  1

• gpuserver: named semaphore to fix 100% idle CPU from sched_yield()

  #1101·antonvnv opened Apr 21, 2026·

  ·
  2

• Reclassify taxonomy

  #1093·rosekim2001-dev opened Mar 25, 2026·

  ·

• Fix buffer overflow in k-mer prefilter with highly conserved sequences

  #1091·mzueva opened Mar 23, 2026·

  ·

• Update databases.sh

  #1086·stas-malavin opened Mar 8, 2026·

  ·
  1

• Add nucleotide database support to result2msa

  #1084·antonvnv opened Mar 7, 2026·

  ·

• Enable GPU-accelerated translated search

  #1082·KimYannn opened Mar 1, 2026·

  ·

• Enable GPU-accelerated nucleotide ungapped prefilter

  #1081·KimYannn opened Mar 1, 2026·

  ·

• Easysearch extractframes

  #1076·LunaJang opened Feb 4, 2026·

  ·

• add include for thread in gpuserver.cpp

  #1069·snehring opened Dec 12, 2025·

  ·

• Use comparison instead of unsigned int substraction

  #1052·StanislavGlebik opened Nov 10, 2025·

  ·

• Allow more than 2^32 sequences to be clustered

  #1039·martin-steinegger opened Sep 29, 2025·

  ·
  6

• SIMDe: update to v0.8.4-rc1+0faa907b2

  #1022·mr-c opened Jul 27, 2025·

  ·
  1

• Added AVX512 intrinsics-based Ungapped SW alignent kernel

  #983·gsc74 opened Apr 14, 2025·

  ·

• createsubdb supports list of indexes as an input

  #957·sooyoung-cha opened Feb 19, 2025·

  ·

• Change createdb.cpp so that it takes in ".txt" file containing paths of different fasta files

  #879·elpis51613 opened Aug 26, 2024·

  ·
  3

• alignproteome added

  #875·martin-steinegger opened Aug 18, 2024·

  ·
  33

• NEXT LINCLUST

  #873·ChunShow opened Aug 14, 2024·

  ·
  13

• Allow passing different values for nucleotide and aminoacid for spacedKmers

  #867·elpis51613 opened Jul 25, 2024·

  ·

• fix bad memory allocation with initX

  #787·gamcil opened Dec 6, 2023·

  ·

• make it so that pairaln requires only .idx_mapping if .idx input is used

  #694·xeniorn opened Apr 19, 2023·

  ·

• Fix gff2db segfault, and keep entryname in lookup when multithreaded

  #635·RuoshiZhang opened Nov 3, 2022·

  ·